{Importer} Histology scan

None

Parameters

input: Histology scan ( input )

database: Choice ( input )

format: Choice ( input )

study: String ( input )

center: String ( input )

specie: OpenChoice ( input )

subjects: ListOf( String ) ( input )

marker: OpenChoice ( input )

scan_session: String ( input )

scan_number: Integer ( input )

serie: Integer ( input )

number_of_slices: Integer ( input )

number_of_lines_per_slide: Integer ( input )

number_of_columns_per_slide: Integer ( input )

resolution_levels: ListOf( Integer ) ( optional, input )

time_point: String ( optional, input )

acquisition_date: String ( optional, input )

output_files: ListOf( Histology scan ) ( output )

output_bounding_boxes: Histology scan bounding boxes ( optional, output )

Technical information

Toolbox : Bioprocessing

User level : 0

Identifier : ImportScan

File name : brainvisa/toolboxes/bioprocessing/processes/import/ImportScan.py

Supported file formats :

input :

gz compressed NIFTI-1 image, Aperio svs, BMP image, DICOM image, Directory, ECAT i image, ECAT v image, FDF image, FreesurferMGH, FreesurferMGZ, GIF image, GIS image, Hamamatsu ndpi, Hamamatsu vms, Hamamatsu vmu, JPEG image, Leica scn, MINC image, NIFTI-1 image, PBM image, PGM image, PNG image, PPM image, SPM image, Sakura svslide, TIFF image, TIFF image, TIFF(.tif) image, TIFF(.tif) image, VIDA image, Ventana bif, XBM image, XPM image, Zeiss czi, gz compressed MINC image, gz compressed NIFTI-1 image

output_files :

gz compressed NIFTI-1 image, BMP image, DICOM image, Directory, ECAT i image, ECAT v image, FDF image, GIF image, GIS image, JPEG image, MINC image, NIFTI-1 image, PBM image, PGM image, PNG image, PPM image, SPM image, TIFF image, TIFF(.tif) image, VIDA image, XBM image, XPM image, gz compressed MINC image, gz compressed NIFTI-1 image

output_bounding_boxes :

JSON file, JSON file